CarolinaPB / nanopore-assembly
Pipeline to assemble oxford nanopore long sequencing reads and perform variant calling with long and short reads
☆9Updated last year
Alternatives and similar repositories for nanopore-assembly:
Users that are interested in nanopore-assembly are comparing it to the libraries listed below
- whole genome MLST analysis☆40Updated 9 months ago
- Influenza genome analysis Nextflow workflow☆19Updated 3 weeks ago
- create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks☆43Updated 6 months ago
- perSVade: personalized Structural Variation detection☆38Updated 2 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆53Updated last week
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated last year
- Pipeline for metagenome and metatranscriptome joint assembly☆20Updated last year
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆39Updated 2 years ago
- ☆32Updated 4 years ago
- EnTAP is moving to GitLab for future changes https://gitlab.com/PlantGenomicsLab/EnTAP☆38Updated 3 weeks ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆32Updated 2 months ago
- Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers☆33Updated 11 months ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- A simple pipeline for bacterial assembly and quality control☆15Updated last week
- Bacterial GWAS analysis☆36Updated 2 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- scripts for sequence and feature conversion, annotation, analysis ...☆27Updated 10 months ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆58Updated last year
- A tool for the recovery of unassembled telomeres from soft-clipped read alignments.☆35Updated last month
- A tool to analyze telomeric reads from WGS or telobait-capture long-read sequencing data☆9Updated 4 months ago
- Classifier for metagenomic sequences using FM-index with run-block compressed BWT.☆53Updated last month
- Snakemake workflow for bacterial genome assembly + polishing for Oxford Nanopore (ONT) sequencing using multiple tools.☆21Updated 9 months ago
- Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing☆21Updated 2 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆23Updated 6 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- Evaluating Nanopore-based bacterial variant calling☆15Updated 2 months ago
- A toolkit for prokaryotic comparative genomics☆40Updated 3 weeks ago
- Tiberius is a deep learning gene finder.☆47Updated last week
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆28Updated 7 months ago
- A comparative genomics workflow using Nextflow, conda, Julia and R☆35Updated 9 months ago